openproblems-bio / openproblemsLinks
Formalizing and benchmarking open problems in single-cell genomics
☆420Updated 2 months ago
Alternatives and similar repositories for openproblems
Users that are interested in openproblems are comparing it to the libraries listed below
Sorting:
- Benchmarking analysis of data integration tools☆404Updated 4 months ago
- Reference mapping for single-cell genomics☆397Updated 2 months ago
- Single-cell perturbation analysis☆283Updated this week
- This is the alpha version of the CellOracle package☆413Updated this week
- Scanpy Tutorials.☆234Updated last week
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆490Updated 2 weeks ago
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆415Updated 2 weeks ago
- CellRank: dynamics from multi-view single-cell data☆413Updated 2 weeks ago
- A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…☆233Updated last month
- A tool for semi-automatic cell type classification☆451Updated this week
- LIANA+: an all-in-one framework for cell-cell communication☆263Updated 2 weeks ago
- Single cell perturbation prediction☆333Updated last year
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆405Updated 5 months ago
- RNA Velocity generalized through dynamical modeling☆486Updated last month
- An overview of algorithms for estimating pseudotime in single-cell RNA-seq data☆437Updated last week
- Python package to perform enrichment analysis from omics data.☆253Updated this week
- Spatial alignment of single cell transcriptomic data.☆352Updated 7 months ago
- Models and datasets for perturbational single-cell omics☆172Updated 3 years ago
- tools and notes for spatial omics☆343Updated 11 months ago
- muon is a multimodal omics Python framework☆262Updated 2 weeks ago
- 🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.☆248Updated last week
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆461Updated 8 months ago
- Panoramic stitching of single cell data☆295Updated 6 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆573Updated 7 months ago
- Graph-linked unified embedding for single-cell multi-omics data integration☆452Updated 2 months ago
- A scanpy extension to analyse single-cell TCR and BCR data.☆245Updated this week
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆436Updated 2 weeks ago
- A package to help convert different single-cell data formats to each other☆452Updated last year
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆375Updated 6 months ago
- Comparison of methods for trajectory inference on single-cell data 🥇☆219Updated 2 years ago